Dear All
I would like to compile my code that uses Petsc and Sundials using a morph of
the petsc makefile on my supercomputer. There are a few technical issues that I
will appreciate your feedback on.
My code uses Petsc and Sundials. On my local machine, I installed Petsc with
Sundials. The makefile examples I got allow me to compile my code which is a
single file. I can see that -lsundials_cvode -lsundials_nvecserial
-lsundials_nvecparallel are all there, as well as the blas lapack. Pasted below
is my simple makefile and what happens when I make sk2d
Now I want to port my code to our local supercomputer, where I am not admin.
The admin have installed petsc. I managed to compile and run the examples of
that install - so it works on its own. This copy of petsc was not installed by
connecting to Sundials. Therefore, I have installed sundials in my home
directory. I tried to add the sundials paths in the makefile below at various
locations (in fact, I could not work out where exactly to put the includes and
libs!), but I could not get my code to compile. Any suggestions?
cheers
Sanjay
Local computer makefile:
cat makefile
include ${PETSC_DIR}/conf/variables
include ${PETSC_DIR}/conf/rules
sk2d: sk2d.o chkopts
-${CLINKER} -o sk2d sk2d.o ${PETSC_TS_LIB} -lm -inline-calloc
veryclean:
rm -rf *.dat *.vtk *.vts ex15 *.o sk2d *~
output of make sk2d:
make sk2d
/media/6c6201d2-4e2e-4b24-8d04-263b5bc06dfa/sanjay/petsc/linux-gnu-c-debug/bin/mpicc
-o sk2d.o -c -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing
-Wno-unknown-pragmas -g3 -O0 -I/export2/sanjay/petsc/include
-I/export2/sanjay/petsc/linux-gnu-c-debug/include
-I/media/6c6201d2-4e2e-4b24-8d04-263b5bc06dfa/sanjay/petsc/linux-gnu-c-debug/include
`pwd`/sk2d.c
/export2/sanjay/mypetscProgs/Work/twod/sk2d.c: In function ‘main’:
/export2/sanjay/mypetscProgs/Work/twod/sk2d.c:112:24: warning: variable
‘usr_time’ set but not used [-Wunused-but-set-variable]
/export2/sanjay/mypetscProgs/Work/twod/sk2d.c:111:7: warning: unused variable
‘output’ [-Wunused-variable]
/export2/sanjay/mypetscProgs/Work/twod/sk2d.c:101:72: warning: unused variable
‘usr_nbs’ [-Wunused-variable]
/media/6c6201d2-4e2e-4b24-8d04-263b5bc06dfa/sanjay/petsc/linux-gnu-c-debug/bin/mpicc
-fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -g3 -O0
-o sk2d sk2d.o -Wl,-rpath,/export2/sanjay/petsc/linux-gnu-c-debug/lib
-L/export2/sanjay/petsc/linux-gnu-c-debug/lib -lpetsc
-Wl,-rpath,/media/6c6201d2-4e2e-4b24-8d04-263b5bc06dfa/sanjay/petsc/linux-gnu-c-debug/lib
-L/media/6c6201d2-4e2e-4b24-8d04-263b5bc06dfa/sanjay/petsc/linux-gnu-c-debug/lib
-lscalapack -lsundials_cvode -lsundials_nvecserial -lsundials_nvecparallel
-lflapack -lfblas -lX11 -lssl -lcrypto -lpthread -lm
-Wl,-rpath,/usr/lib/gcc/x86_64-redhat-linux/4.6.3
-L/usr/lib/gcc/x86_64-redhat-linux/4.6.3 -lmpichf90 -lgfortran -lm -lgfortran
-lm -lquadmath -lm -lmpichcxx -lstdc++
-Wl,-rpath,/media/6c6201d2-4e2e-4b24-8d04-263b5bc06dfa/sanjay/petsc/linux-gnu-c-debug/lib
-L/media/6c6201d2-4e2e-4b24-8d04-263b5bc06dfa/sanjay/petsc/linux-gnu-c-debug/lib
-Wl,-rpath,/usr/lib/gcc/x86_64-redhat-linux/4.6.3
-L/usr/lib/gcc/x86_64-redhat-linux/4.6.3 -ldl
-Wl,-rpath,/media/6c6201d2-4e2e-4b24-8d04-263b5bc06dfa/sanjay/petsc/linux-gnu-c-debug/lib
-lmpich -lopa -lmpl -lrt -lpthread -lgcc_s -ldl -lm -inline-calloc
